Vichy Data (70 genes) PDF
-----------------------------------------------------------------
Linda
I looked at the plot and it looks fine.
The message below the plot suggests a matalb version problem. Can you
check if this is the problem?
You should now be able to proceed with producing a model for k =8 .
Maybe Juan has the matlab matrix file already and she can post it on the
website
David
-----------------------------------------------------------------------------------
Hi, David and Linda
This is the F vs K plot (10 seeds). k=8 is the optimum.
I had no trouble generating matrics (yn.mat and inpn.mat). I looked into the xls file and found from line 32 there are some notations following numerical data in the same row. I'm guessing the problem is probably coming from the function 'xlsread'. Is your MATLAB too old? I'm using MATLAB 7.0.1.
-Juan
--------------------------------------------------------------------------
Juan
Would you be able to help Linda debug this? I won't have any time to look
at it before next week. First key steps would be to produce F vs K plots
for this data. I don't un derstand what Linda means by "it would only
accept 31 out of the 70 genes".
Many thanks
David
---------- Forwarded message ----------
Date: Fri, 2 Mar 2007 17:05:25 -0000
From: "Hughes, Linda"
To: "'D.L.Wild@warwick.ac.uk' (E-mail)"
Cc: "B-Wollaston, Vicky"
Subject: modelling
Hi david
i ran vickys data through the modelling scripts. The bad news is that it
would only accept 31 of the 70 genes i wanted to put through to generate the
matrices. im not sure if this is a problem with the excel file or matlab as
i re-created the excel file a number of times but it still wont work.
i wonder if you could run the script with this excel file on your laptop so
i know where the problem is coming from.
<> <>
i decided to carry on with the 31 that would work and have run the FSvskk
script without any problem, heres a pdf of the output with a single seed (i
will put everything on the weblog when i come back) just ignore the control
data on the left. it seems that matrix 6 is the optimum.
<>
i was also wondering if you would send me a screen dump of the commands you
used to run CBDioZ after you loaded the relevant matrix for the example data
as being a newbie to matlab, im still struggling with syntax issues; im
particularly interested in the Imagesc command to view the interactions.
lastly im now connected to the buffalo servers and have been trying to run
theFSvskk script using the cluster, i was wondering if you new whether
matlab is installed on the server or whether i need to run it another way?
else i can just ask the buffalo people
sorry bout the long email, i just needed to ask everything before i go on
holiday and give you an idea of the current state of play
thanks
linda
Linda
I looked at the plot and it looks fine.
The message below the plot suggests a matalb version problem. Can you
check if this is the problem?
You should now be able to proceed with producing a model for k =8 .
Maybe Juan has the matlab matrix file already and she can post it on the
website
David
-----------------------------------------------------------------------------------
Hi, David and Linda
This is the F vs K plot (10 seeds). k=8 is the optimum.
I had no trouble generating matrics (yn.mat and inpn.mat). I looked into the xls file and found from line 32 there are some notations following numerical data in the same row. I'm guessing the problem is probably coming from the function 'xlsread'. Is your MATLAB too old? I'm using MATLAB 7.0.1.
-Juan
--------------------------------------------------------------------------
Juan
Would you be able to help Linda debug this? I won't have any time to look
at it before next week. First key steps would be to produce F vs K plots
for this data. I don't un derstand what Linda means by "it would only
accept 31 out of the 70 genes".
Many thanks
David
---------- Forwarded message ----------
Date: Fri, 2 Mar 2007 17:05:25 -0000
From: "Hughes, Linda"
To: "'D.L.Wild@warwick.ac.uk' (E-mail)"
Cc: "B-Wollaston, Vicky"
Subject: modelling
Hi david
i ran vickys data through the modelling scripts. The bad news is that it
would only accept 31 of the 70 genes i wanted to put through to generate the
matrices. im not sure if this is a problem with the excel file or matlab as
i re-created the excel file a number of times but it still wont work.
i wonder if you could run the script with this excel file on your laptop so
i know where the problem is coming from.
<
i decided to carry on with the 31 that would work and have run the FSvskk
script without any problem, heres a pdf of the output with a single seed (i
will put everything on the weblog when i come back) just ignore the control
data on the left. it seems that matrix 6 is the optimum.
<
i was also wondering if you would send me a screen dump of the commands you
used to run CBDioZ after you loaded the relevant matrix for the example data
as being a newbie to matlab, im still struggling with syntax issues; im
particularly interested in the Imagesc command to view the interactions.
lastly im now connected to the buffalo servers and have been trying to run
theFSvskk script using the cluster, i was wondering if you new whether
matlab is installed on the server or whether i need to run it another way?
else i can just ask the buffalo people
sorry bout the long email, i just needed to ask everything before i go on
holiday and give you an idea of the current state of play
thanks
linda
